genome.fa.s3063.2.7.7.80.10.50.1000.1.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01003063.1 Hibiscus syriacus cultivar Beakdansim tig00006385_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  217600

Tables:   1   2   

This is table  1  of  2  ( 130 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8538--8576	17	2.3	17	81	0	51	30	2	7	58	1.39
13773--13841	24	2.8	26	83	12	85	31	24	5	37	1.79
13806--13841	12	3.0	12	91	0	63	36	25	5	33	1.79
14149--14332	64	2.9	63	84	3	226	26	17	20	36	1.94
14220--14374	64	2.4	64	82	4	188	29	18	17	34	1.94
20542--20574	15	2.2	15	100	0	66	33	33	18	15	1.92
20686--20754	24	2.8	26	83	12	85	31	24	5	37	1.79
20719--20754	12	3.0	12	91	0	63	36	25	5	33	1.79
21064--21284	64	3.5	63	83	4	239	27	18	20	33	1.96
22759--22802	21	2.1	21	86	0	61	47	4	4	43	1.44
36367--36391	12	2.1	12	100	0	50	40	0	0	60	0.97
37056--37116	31	1.9	32	83	6	79	32	8	4	54	1.52
37563--37623	28	2.2	27	94	2	104	32	16	9	40	1.81
37785--38219	228	1.9	230	91	4	729	30	13	17	39	1.87
38562--38643	18	4.6	18	87	1	112	32	25	6	35	1.81
45379--45413	18	1.9	18	94	0	61	42	2	14	40	1.60
48291--48491	99	2.0	99	97	0	375	34	20	10	34	1.87
48900--48926	4	6.8	4	100	0	54	77	0	0	22	0.76
48993--49018	3	8.7	3	100	0	52	69	0	0	30	0.89
50467--50535	27	2.6	27	78	17	72	66	1	2	28	1.14
50466--50534	34	2.1	33	86	8	95	68	1	2	27	1.13
50534--50563	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50609--50684	35	2.2	34	86	9	109	44	7	2	44	1.47
50609--50697	35	2.5	33	82	12	99	42	8	3	44	1.52
50669--50711	22	1.9	23	86	13	63	39	9	2	48	1.48
50697--50760	2	32.5	2	96	3	121	50	0	0	50	1.00
50746--50837	38	2.4	37	83	12	105	44	7	4	43	1.52
51462--52595	84	13.7	83	77	6	1072	24	20	24	29	1.99
51462--52595	165	6.9	162	86	5	1253	24	20	24	29	1.99
51481--52595	249	4.5	248	84	5	1304	24	20	24	29	1.99
56391--56420	13	2.3	13	100	0	60	66	0	0	33	0.92
56550--56575	4	6.5	4	100	0	52	76	0	0	23	0.78
56661--56695	12	3.2	11	88	11	54	71	2	5	20	1.19
58118--58188	3	23.3	3	78	13	74	66	1	1	30	1.09
58250--58337	37	2.3	37	86	9	124	46	6	2	44	1.42
58250--58348	38	2.6	38	83	12	123	45	8	3	43	1.49
58315--58362	25	1.9	25	91	8	80	43	8	2	45	1.45
58348--58417	2	35.5	2	97	2	133	50	0	0	50	1.00
80135--80159	13	1.9	13	100	0	50	48	20	0	32	1.50
84203--84240	19	2.0	19	100	0	76	21	10	21	47	1.80
90156--90241	15	5.8	15	86	2	129	43	6	18	31	1.77
90156--90241	45	1.9	44	97	2	163	43	6	18	31	1.77
90224--90293	20	3.5	20	96	0	131	40	10	14	35	1.79
90453--90614	28	5.9	27	72	18	99	50	1	1	46	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
90452--90542	30	3.0	30	80	16	91	52	2	1	43	1.20
90536--90611	15	4.9	17	75	18	53	48	0	1	50	1.09
90569--90613	20	2.2	20	84	7	56	53	0	0	46	1.00
90809--90928	42	2.9	42	94	0	204	45	17	20	17	1.86
95122--95194	23	3.2	23	92	0	119	38	21	5	34	1.77
94771--97983	431	7.5	431	97	0	6005	39	12	7	41	1.71
95567--95625	23	2.6	23	88	0	82	40	16	5	37	1.71
95984--96035	23	2.3	22	90	6	77	44	19	1	34	1.62
95994--96056	23	2.7	23	90	0	90	38	19	4	38	1.73
96415--96466	23	2.3	22	90	6	77	44	19	1	34	1.62
96425--96487	23	2.7	23	90	0	90	38	19	4	38	1.73
96856--96918	23	2.7	23	87	0	90	38	22	4	34	1.75
97287--97349	23	2.7	23	92	0	99	38	20	4	36	1.74
97718--97780	23	2.7	23	92	0	99	38	20	4	36	1.74
98202--98288	39	2.2	39	95	0	156	17	13	20	48	1.81
98557--98593	18	2.1	18	89	0	56	51	10	5	32	1.60
98980--99029	25	2.0	25	92	0	82	44	20	8	28	1.79
98979--99028	14	3.8	13	72	17	50	44	22	8	26	1.80
99313--99375	23	2.7	23	87	0	90	38	19	4	38	1.73
99721--99786	25	2.6	25	80	0	87	42	13	9	34	1.76
102250--102741	183	2.7	183	96	0	878	33	17	14	34	1.91
103133--103195	23	2.7	23	92	0	99	38	20	4	36	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
104782--104861	9	8.6	9	72	8	61	22	33	6	37	1.79
104785--104873	12	7.4	12	87	0	97	21	33	7	37	1.82
104781--104861	6	13.5	6	82	0	81	23	33	6	37	1.80
104797--104873	36	2.1	36	92	0	127	20	33	9	36	1.85
104785--104876	6	15.3	6	81	0	76	20	33	7	38	1.81
105137--106247	198	5.6	198	97	0	2051	30	17	15	36	1.91
106366--106414	19	2.6	19	93	0	80	57	10	2	30	1.43
108205--108269	33	2.0	33	90	0	103	23	49	0	27	1.50
108303--108346	21	2.1	21	91	0	70	15	31	11	40	1.83
110565--110623	20	3.0	19	78	9	64	20	13	10	55	1.66
110813--111288	229	2.1	227	92	3	812	40	7	6	45	1.59
111534--111726	36	5.4	35	78	11	153	45	4	7	42	1.52
111558--111771	36	5.9	35	76	16	165	41	5	9	43	1.60
111623--111647	12	2.1	12	100	0	50	40	8	8	44	1.63
111558--111771	71	3.0	70	81	12	231	41	5	9	43	1.60
111834--111871	3	12.3	3	94	5	67	31	0	0	68	0.90
114711--114755	19	2.4	19	92	3	74	11	13	8	66	1.44
118110--118938	84	9.9	83	84	3	961	31	23	19	25	1.98
118081--118937	167	5.1	167	89	3	1124	31	23	19	25	1.98
118081--119010	247	3.7	245	83	4	1031	31	23	19	25	1.98
119654--119896	36	6.7	35	74	15	147	43	5	8	42	1.58
119655--119847	36	5.5	34	78	11	174	42	5	9	43	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
119634--119896	72	3.6	69	78	12	235	43	4	8	42	1.56
119720--119744	12	2.1	12	100	0	50	40	8	8	44	1.63
119655--119895	71	3.3	69	80	13	231	43	5	8	42	1.58
119929--119966	3	12.3	3	94	5	67	31	0	0	68	0.90
126428--126461	15	2.3	15	89	0	50	50	2	26	20	1.63
132919--132990	37	1.9	38	86	8	103	38	12	6	41	1.70
135407--135508	44	2.3	44	84	3	125	34	20	17	27	1.95
135981--136283	149	2.0	149	98	0	588	27	15	20	35	1.93
136262--136307	23	2.0	23	91	0	74	21	23	26	28	1.99
142410--142568	63	2.5	63	82	2	185	32	18	22	26	1.97
143024--143328	149	2.0	149	98	0	583	27	14	21	36	1.92
143305--143350	23	2.0	23	91	0	74	21	21	26	30	1.99
146597--146656	24	2.5	24	86	7	79	48	1	0	50	1.11
147582--147642	28	2.1	28	84	3	77	34	11	6	47	1.66
148059--148443	194	2.0	189	88	4	567	46	7	3	42	1.47
148848--148888	21	2.0	21	95	0	73	43	14	0	41	1.45
157259--157306	23	2.1	23	88	0	69	35	12	18	33	1.89
157718--157790	23	3.2	23	78	0	74	39	17	5	36	1.73
162134--162214	3	27.0	3	75	0	72	23	34	6	35	1.80
162138--162226	12	7.4	12	84	0	88	21	34	7	35	1.82
162138--162229	18	5.1	18	77	0	76	20	34	7	36	1.81
162150--162226	36	2.1	36	90	0	118	20	35	9	35	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
162138--162229	6	15.3	6	79	0	67	20	34	7	36	1.81
163663--164278	195	3.1	197	93	4	1079	31	17	15	35	1.91
163954--164592	321	2.0	314	93	4	1106	30	17	16	36	1.92
164148--164401	125	2.0	126	96	3	469	27	17	18	36	1.93
164276--165123	195	4.4	198	92	4	1350	30	16	16	37	1.90
165241--165289	19	2.6	19	93	0	80	57	10	2	30	1.43
167133--167173	19	2.2	19	86	0	55	19	29	12	39	1.88
169398--169444	20	2.4	19	78	7	58	19	17	10	53	1.72
169566--169611	20	2.3	20	89	10	76	17	17	10	54	1.70
169676--170123	228	2.0	227	94	2	783	40	7	7	44	1.61

Tables:   1   2